make_flocker_data_static

Format data for single-season occupancy model, to be passed to 
 <code>flock()</code>.

Fit occupancy models in 'Stan' via 'brms'. The full variety
of 'brms' formula-based effects structures are available to use in
multiple classes of occupancy model, including single-season
models, models with data augmentation for never-observed species,
dynamic (multiseason) models with explicit colonization and extinction
processes, and dynamic models with autologistic occupancy dynamics.
Formulas can be specified for all relevant distributional terms,
including detection and one or more of occupancy, colonization,
extinction, and autologistic depending on the model type. Several
important forms of model post-processing are provided. References:
Bürkner (2017) <doi:10.18637/jss.v080.i01>; Carpenter et al. (2017)
<doi:10.18637/jss.v076.i01>; Socolar & Mills (2023)
<doi:10.1101/2023.10.26.564080>.

Jacob B. Socolar

flocker

Flexible Occupancy Estimation with Stan

Simon C. Mills

Paul-Christian Bürkner

make_flocker_data_static function

<dl><dt>obs</dt>
<dd>An I x J matrix-like object where closure is assumed across rows 
and columns are repeated sampling events. Allowable values are 1 (detection), 
0 (no detection), and NA (no sampling event).</dd>
<dt>unit_covs</dt>
<dd>A dataframe of covariates for each unit that are constant 
across repeated sampling events within closure-units.</dd>
<dt>event_covs</dt>
<dd>A named list of I x J matrices, each one corresponding to a covariate
that varies across repeated sampling events within closure-units</dd>
<dt>quiet</dt>
<dd>Hide progress bars and informational messages?</dd></dl>

Arguments

Format data for single-season occupancy model, to be passed to 
 flock(). — make_flocker_data_static

<dl>

<dt>obs</dt>
<dd>An I x J matrix-like object where closure is assumed across rows 
and columns are repeated sampling events. Allowable values are 1 (detection), 
0 (no detection), and NA (no sampling event).</dd>


<dt>unit_covs</dt>
<dd>A dataframe of covariates for each unit that are constant 
across repeated sampling events within closure-units.</dd>


<dt>event_covs</dt>
<dd>A named list of I x J matrices, each one corresponding to a covariate
that varies across repeated sampling events within closure-units</dd>


<dt>quiet</dt>
<dd>Hide progress bars and informational messages?</dd>

</dl>

make_flocker_data_static: Format data for single-season occupancy model, to be passed to `flock()`.

Description

Usage

Value

Arguments

Examples